sage-5.10.beta5 build error for scipy-0.12.0.p0.log

[Stephen Montgomery-Smith]

This is building with the FreeBSD port, using SAGE_ATLAS_LIB=/usr/local/lib.

I really don't know what to look for, or which errors are fatal and
which are just warnings.

See attachment.

[Jean-Pierre Flori]

Heyn

Could you post the atlas log as well please?

Best,
JP

[Stephen Montgomery-Smith]

Here it is.

[Jean-Pierre Flori]

And config.log from scipy build folder?

[Stephen Montgomery-Smith]

There isn't one. It looks like scipy uses setup.py instead of configure.

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[Jean-Pierre Flori]

IIRC scipy adds strange prefix to atlas library names on FreeBSD (_r things).
I seem to remember struggling with that on my previous FreeBSD attempt.
Not sure though why I did not stumble upon that durng my current attempt.

Just checked and as I used a mixture of 5.9 + #10508 without removing the (reference) blas and lapack spkg, it seems scipy found the libraries built by the blas and lapack spkgs.

[Jean-Pierre Flori]

On Monday, May 27, 2013 11:27:58 PM UTC+2, Jean-Pierre Flori wrote:

IIRC scipy adds strange prefix to atlas library names on FreeBSD (_r things).
I seem to remember struggling with that on my previous FreeBSD attempt.
Not sure though why I did not stumble upon that durng my current attempt.

Just checked and as I used a mixture of 5.9 + #10508 without removing the (reference) blas and lapack spkg, it seems scipy found the libraries built by the blas and lapack spkgs.

In fact it seems that it is numpy which is tricky.
See my own rants at https://groups.google.com/d/msg/sage-devel/b8ZGqE6Y7Vg/XLkduDIJsBUJ

[Jean-Pierre Flori]

See http://www.freebsd.org/cgi/cvsweb.cgi/ports/math/py-numpy/files/patch-numpy-distutils-system_info.py

[Stephen Montgomery-Smith]

I just found out that beta5 has atlas version 3.10.1, and no spkg for
blas, whereas beta4 used atlas 3.8.4 and has a spkg for blas. It looks
like your patch is applied to beta5.

So I will try rebuilding without SAGE_ATLAS_LIB set.

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[Stephen Montgomery-Smith]

Our emails crossed. I'll try this one first.

[Jean-Pierre Flori]

Yup, I think ATLAS was in fact never used on FreeBSD, only the reference blas and lapack.
But now that we do not ship them anymore, we'll have to patch numpy to help scipy (?!!?!) to find ATLAS...

[Stephen Montgomery-Smith]

It worked!

Thank you very much.

[Jean-Pierre Flori]

I've opened http://trac.sagemath.org/sage_trac/ticket/14651 for this.